Variant report

Variant	rs10840318
Chromosome Location	chr11:9916603-9916604
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10770071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840319	0.88[ASN][1000 genomes]
rs11042533	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11042540	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs12272416	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1398499	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1512829	1.00[JPT][hapmap]
rs1828639	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2403224	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3907923	0.89[ASW][hapmap];0.93[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4409812	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4910072	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6483804	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7108583	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7119074	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.97[ASN][1000 genomes]
rs7124727	0.85[TSI][hapmap]
rs7128275	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9667075	1.00[JPT][hapmap]
rs9919621	0.85[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv2762895	chr11:9849511-9954549	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10840318	NLRP10	cis	parietal	SCAN

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9878800-9952200	Weak transcription	Aorta	Aorta
2	chr11:9882400-9929600	Weak transcription	Primary T cells from cord blood	blood
3	chr11:9891400-9916800	Weak transcription	Primary B cells from cord blood	blood
4	chr11:9892400-9921200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
6	chr11:9898200-9917000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr11:9902200-9917400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr11:9904000-9937000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr11:9906800-9920400	Weak transcription	HUVEC	blood vessel
10	chr11:9909400-9916800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr11:9910000-9954600	Weak transcription	Pancreas	Pancrea
12	chr11:9910200-9921000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr11:9911600-9919200	Weak transcription	Fetal Brain Female	brain
14	chr11:9911800-9921200	Weak transcription	HMEC	breast
15	chr11:9913400-9916800	Weak transcription	HepG2	liver
16	chr11:9913400-9919800	Weak transcription	Rectal Smooth Muscle	rectum
17	chr11:9913400-9921000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr11:9913600-9921200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr11:9913600-9928800	Weak transcription	Right Ventricle	heart
20	chr11:9913800-9927400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr11:9914200-9926800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr11:9914400-9917400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr11:9914400-9917800	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr11:9914400-9927600	Weak transcription	Brain Anterior Caudate	brain
25	chr11:9914600-9916800	Weak transcription	Fetal Heart	heart
26	chr11:9914600-9917400	Weak transcription	Dnd41	blood
27	chr11:9914600-9917600	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr11:9914800-9917000	Strong transcription	A549	lung
29	chr11:9914800-9917400	Strong transcription	Placenta	Placenta
30	chr11:9914800-9917600	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr11:9915000-9917600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr11:9915000-9917600	Strong transcription	Liver	Liver
33	chr11:9915000-9918600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr11:9915000-9921000	Weak transcription	Hela-S3	cervix
35	chr11:9915000-9937200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr11:9915200-9917000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr11:9915200-9917000	Strong transcription	Fetal Muscle Trunk	muscle
38	chr11:9915200-9917200	Strong transcription	Ovary	ovary
39	chr11:9915200-9917600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr11:9915200-9922600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr11:9915400-9916800	Weak transcription	HSMM	muscle
42	chr11:9915400-9921400	Weak transcription	NHLF	lung
43	chr11:9915400-9923200	Weak transcription	HSMMtube	muscle
44	chr11:9915400-9926800	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr11:9915400-9927600	Weak transcription	Colon Smooth Muscle	Colon
46	chr11:9915600-9921200	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr11:9915600-9923400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr11:9915800-9923000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr11:9916000-9916800	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
50	chr11:9916200-9916800	Strong transcription	H1 Cell Line	embryonic stem cell

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